KnownGene

From Genecats
Revision as of 15:37, 28 July 2021 by Braney (talk | contribs)
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Build UniProt and Protein databases

Initialize work directory

  • Create and cd into work directory of the form /hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build
  • Start a screen.
  • Copy buildEnv.sh from previous build on this db

Setting environment variables

The environment variables used in the build are set in the script buildEnv.sh. All the other scripts assume that this script has been sourced in the current shell.

Extracting Gencode data

Building initial knownGene table

Adding primary reference tables

Building final knownGene core tables

Building bigGenePred

Adding trackDb entry

all.joiner changes

Retrieved from "https://genomewiki.ucsc.edu/genecats/index.php?title=KnownGene&oldid=5638"